TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1726/-:

update plot	correlation	link to info on gene
Rv3077/-	(cc=0.5916)	info on Rv3077/-
Rv3742c/-	(cc=0.5788)	info on Rv3742c/-
Rv0342/iniA	(cc=0.5451)	info on Rv0342/iniA
Rv2313c/-	(cc=0.5379)	info on Rv2313c/-
Rv3664c/dppC	(cc=0.5365)	info on Rv3664c/dppC
Rv1413/-	(cc=0.5321)	info on Rv1413/-
Rv0968/-	(cc=0.5265)	info on Rv0968/-
Rv3329/-	(cc=0.525)	info on Rv3329/-
Rv2679/echA15	(cc=0.5212)	info on Rv2679/echA15
Rv0399c/lpqK	(cc=0.5157)	info on Rv0399c/lpqK

Correlation of Rv1726/- with Rv2313c/-

Normalized LFCs for Rv1726/-:
(description and provenance of datasets)

	Rv1726/-	Rv2313c/-
Fe_supp_jason_reseq	-0.541	0.762
low_pH_jason_reseq	-0.502	-0.261
NO_jason_reseq	0.727	0.113
B6_jason_reseq	0.182	1.271
MHCII_jason_reseq	0.394	1.219
Isoniazid02	-2.193	-2.559
Rifampicin4	-0.623	0.092
Ethambutol3	-1.188	-2.421
Meropenem3	-2.035	-2.41
Vancomycin16	-0.942	-1.183
Rv2680_day32	-0.623	0.218
H37Rv_KO_MarP	-0.144	-0.058
hypoxia_3wks	0.343	0.1
hypoxia_6wks	0.198	0.04
glycerol	-0.032	0.62
cholesterol	-0.173	0.683
AJ	0.82	0.188
Bibs02	0.009	-0.67
Bibs02c	0.142	0.241
BL6	0.437	0.332
BL6a	-0.065	-0.089
BXD01	-0.306	-0.293
BXD010	-0.362	-0.41
BXD011	-0.674	-0.038
BXD03	-0.154	-1.03
BXD04	0.506	-0.139
BXD05	-0.316	-0.825
BXD06	0.049	-0.264
BXD07	-0.493	-0.031
BXD08	-0.089	-0.705
BXD09	-0.283	-0.118
CAST	-0.494	0.148
CCcont	-0.928	-0.563
DS01	0.577	-0.017
DS02	0.843	0.047
DS04	1.304	-0.384
DS0c	0.0	0.292
GP01	0.433	-0.157
GP02	0.396	-0.841
GP0c	-0.462	0.162
NOD	-0.604	-0.465
NZO	-0.11	0.319
PWK	-0.344	0.696
H37Rv_KO_CtpC	-0.175	0.306
H37Rv_KO_CtpD	0.862	0.314
H37Rv_KO_Rv1272	0.0	0.341
H37Rv_KO_SugABC	1.181	0.312
H37Rv_KO_MbtN	-0.13	0.225
Trans05	0.379	0.197
macrophage_unactivated	0.243	0.956
IL1	0.285	0.027
Rapamycin	0.568	0.819
Tcell	0.342	0.352
GMCSF	0.227	0.451
IFNab	0.26	0.493
IFNg	0.401	0.414
IFNg_GMCSF1	0.899	1.103
Rv1432_day32	0.567	0.129
Rv1565c_day32	0.676	0.182
secA2_input	0.147	-0.1
delta_Rv3594	-0.303	0.457
delta_Rv3717	-0.18	0.0
delta_Rv3811	0.126	0.4
delta_Rv0954	0.121	0.0
PonA1	0.14	-0.145
EccD1_KO	-0.237	0.207
EspI_KO	-0.077	0.459
PE35_KO	-0.578	0.152
PPE68_KO	-0.381	0.237
glycerol2	-0.147	0.563
lignocerate	-0.057	0.399
oleate	-0.22	0.851
phosphatidylcholine	0.063	0.662
acetate	-0.362	-0.502
glucAc	-0.503	-0.111
Rv0950ko	0.247	0.208
Rv1096ko	1.188	0.377
Rv3684ko	0.583	-0.02
delta_otsA_trehalose	2.62	0.373